terraTCGAdata
This is the development version of terraTCGAdata; for the stable release version, see terraTCGAdata.
OpenAccess TCGA Data on Terra as MultiAssayExperiment
Bioconductor version: Development (3.21)
Leverage the existing open access TCGA data on Terra with well-established Bioconductor infrastructure. Make use of the Terra data model without learning its complexities. With a few functions, you can copy / download and generate a MultiAssayExperiment from the TCGA example workspaces provided by Terra.
Author: Marcel Ramos [aut, cre] (ORCID:
Maintainer: Marcel Ramos <marcel.ramos at sph.cuny.edu>
citation("terraTCGAdata")):
Installation
To install this package, start R (version "4.5") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
# The following initializes usage of Bioc devel
BiocManager::install(version='devel')
BiocManager::install("terraTCGAdata")
For older versions of R, please refer to the appropriate Bioconductor release.
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("terraTCGAdata")| Obtain Terra TCGA data as MultiAssayExperiment | HTML | R Script |
| Reference Manual | ||
| NEWS | Text |
Details
| biocViews | DataImport, Infrastructure, Software |
| Version | 1.11.0 |
| In Bioconductor since | BioC 3.15 (R-4.2) (2.5 years) |
| License | Artistic-2.0 |
| Depends | AnVILGCP, MultiAssayExperiment |
| Imports | AnVIL, BiocFileCache, dplyr, GenomicRanges, methods, RaggedExperiment, readr, S4Vectors, stats, tidyr, TCGAutils, utils |
| System Requirements | |
| URL | https://github.com/waldronlab/terraTCGAdata |
| Bug Reports | https://github.com/waldronlab/terraTCGAdata/issues |
See More
| Suggests | AnVILBase, knitr, rmarkdown, BiocStyle, withr, testthat (>= 3.0.0) |
| Linking To | |
| Enhances | |
| Depends On Me | |
| Imports Me | |
| Suggests Me | |
| Links To Me | |
| Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | terraTCGAdata_1.11.0.tar.gz |
| Windows Binary (x86_64) | |
| macOS Binary (x86_64) | |
| macOS Binary (arm64) | |
| Source Repository | git clone https://git.bioconductor.org/packages/terraTCGAdata |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/terraTCGAdata |
| Bioc Package Browser | https://code.bioconductor.org/browse/terraTCGAdata/ |
| Package Short Url | https://bioconductor.org/packages/terraTCGAdata/ |
| Package Downloads Report | Download Stats |